Research workbench
Crystal structure of human bisphosphoglycerate mutase complex with 3-phosphoglycerate (18 days)
Analyse Crystal structure of human bisphosphoglycerate mutase complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2H52
- Type
- protein
- Length
- 508 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bisphosphoglycerate mutase
- EC
- 5.4.2.4, 5.4.2.1, 3.1.3.13
- UniProt
- P07738
- Ligands
- 3PG, HAI
- Pockets
- 6 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bisphosphoglycerate mutase (EC 5.4.2.4, 5.4.2.1, 3.1.3.13) | protein | 255 | 46% helix, 11% strand | P07738 |
| B | Bisphosphoglycerate mutase (EC 5.4.2.4, 5.4.2.1, 3.1.3.13) | protein | 253 | 47% helix, 12% strand | P07738 |
Ligands and binding sites
- 3PG · 3-phosphoglyceric acid · ligand · 2 copies · chains A, B
- HAI · Cyclohexylammonium ion · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 111 | 0.67 | 0.91 | 34 | 3PG |
| 2 | 191 | 0.67 | 0.86 | 44 | 3PG |
| 3 | 360 | 0.62 | 0.78 | 51 | empty |
| 4 | 156 | 0.55 | 0.80 | 18 | empty |
| 5 | 69 | 0.41 | 0.80 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 952 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 2H52 · Crystal structure of human bisphosphoglycerate mutase complex with 3-phosphoglycerate (18… · the same entry in another collection · chain A against A, TM-score 1.00
- P07738 · AlphaFold monomer V2.0 prediction for bisphosphoglycerate mutase (P07738) · a predicted model of the same protein · chain B against A, TM-score 0.99
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P07738
- Elsewhere: RCSB PDB 2H52 · PDBe 2H52 · UniProt P07738
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